Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 190 of 378
Found at i:55881146 original size:28 final size:27
Alignment explanation
Indices: 55881080--55881149 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
55881070 ATAGTGAGTC
*
55881080 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
*
55881107 CGCACACTTAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
55881135 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55881150 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:55888994 original size:27 final size:27
Alignment explanation
Indices: 55888964--55889046 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
55888954 GATGCAAAAG
* *
55888964 TATATAGTGAGTCCGCACACTTAGTGC
1 TATATAATAAGTCCGCACACTTAGTGC
*
55888991 TATATAATCAG-CTCGCACACTTAGTGC
1 TATATAATAAGTC-CGCACACTTAGTGC
* *
55889018 TATATAATCAAATTCGCACACTTAGTGC
1 TATATAAT-AAGTCCGCACACTTAGTGC
55889046 T
1 T
55889047 GTACAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 31 0.65
28 16 0.33
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (27 bp):
TATATAATAAGTCCGCACACTTAGTGC
Found at i:55889043 original size:28 final size:27
Alignment explanation
Indices: 55888977--55889046 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
55888967 ATAGTGAGTC
*
55888977 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
*
55889004 CGCACACTTAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
55889032 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55889047 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:55893377 original size:51 final size:51
Alignment explanation
Indices: 55893307--55893593 Score: 246
Period size: 50 Copynumber: 5.7 Consensus size: 51
55893297 TTTAGGTCAC
** *
55893307 GTGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGTTTCGATCAA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGATTCGATCAA
* * * ** *
55893358 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTTGC-A
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGATTCGAT-CAA
* * *
55893409 -TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGTTTA-CTTCGATCAA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCG-ATAGATTCGATCAA
* * * * * **
55893459 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGA-TAAATCACA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGATTCGATCA-A
* ** * * * *
55893510 -TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGA-TAGGTCGCA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGATTCGATC-AA
*
55893560 -TGTGTAGTACTAAGTGCAGGCTACTATGGGTACC
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
55893594 AAAGAACTTC
Statistics
Matches: 194, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
49 1 0.01
50 118 0.61
51 74 0.38
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (51 bp):
GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGATTCGATCAA
Found at i:55893434 original size:50 final size:50
Alignment explanation
Indices: 55893359--55893594 Score: 280
Period size: 50 Copynumber: 4.7 Consensus size: 50
55893349 TTCGATCAAG
* *
55893359 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * **
55893409 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTG-TT--TACTTCGATCAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG--C-A
* * * ** *
55893459 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGATAAATCACA
1 -TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
*
55893510 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* *
55893560 TGTGTAGTACTAAGTGCAGGCTACTATGGGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
55893595 AAGAACTTCG
Statistics
Matches: 157, Mismatches: 22, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
47 4 0.03
49 3 0.02
50 111 0.71
51 33 0.21
52 2 0.01
54 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
Found at i:55893454 original size:101 final size:101
Alignment explanation
Indices: 55893303--55893543 Score: 331
Period size: 101 Copynumber: 2.4 Consensus size: 101
55893293 CAGTTTTAGG
* ** *
55893303 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGTTTCGATCAAGTGTGTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCGATCAAGTGTGTAGTA
* * * **
55893368 CTAAGTGCAGGCTACTACGTGTACCGGATTGATAGG
66 CTAAGTGCAAGCTACTACGTGTACCAGATGGATAAA
** * *
55893404 TTGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGTTTA-CTTCGATCAAGTGTGTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCG-ATAGCTTCGATCAAGTGTGTAGT
*
55893468 ACTAAGTGCAAGCTACTACGTGTATCAGATGGATAAA
65 ACTAAGTGCAAGCTACTACGTGTACCAGATGGATAAA
*
55893505 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
55893544 AAATTGATAG
Statistics
Matches: 122, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
101 120 0.98
102 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCGATCAAGTGTGTAGTA
CTAAGTGCAAGCTACTACGTGTACCAGATGGATAAA
Found at i:55902552 original size:218 final size:218
Alignment explanation
Indices: 55902174--55902608 Score: 647
Period size: 218 Copynumber: 2.0 Consensus size: 218
55902164 CAAAACATGT
* **
55902174 TTTGGGAGTAGTCCAGGACAAAACCGAGAACTTCAAAAATTTTCTTGAAACTTAGAAAATTTTTC
1 TTTGGGAGTAGTCCAAGACAAAACCGAGAACTTCAAAAATTTTCACGAAACTTAGAAAATTTTTC
* * * * * * *
55902239 CACTAGACAAAGTTCATATGTCTGCGTGGATATGGGACATGCCCGGGTGGGCAGGCCGTGTTGCC
66 CACTAAACAAAGGTCACATGTCTGCGTGGATATGGGACATACCCGGATGGGCAGGCCGTATGGCC
*
55902304 ACACACGCCCCTGTCCTGACCCCGTGTAACTCTCTAACTTGTAACCCATGAACAAATTGAGGTCA
131 ACACACGCCCCTGTCCTGACCCCATGTAACTCTCTAACTTGTAACCCATGAACAAATTGAGGTCA
55902369 CACGGCCAAATCACACGCCCGTA
196 CACGGCCAAATCACACGCCCGTA
* * * *
55902392 TTTGGGAGTAGTCCAAGACTAAACCGAGAACTTCAGAAATTTTCACGACACTTAGAAAGTTTTTC
1 TTTGGGAGTAGTCCAAGACAAAACCGAGAACTTCAAAAATTTTCACGAAACTTAGAAAATTTTTC
* * * *
55902457 CACTAAACAAAGGTCACATGT-TCGTGTGGATATGGGACATACCTGTATGGGCAGGCCGTATGGT
66 CACTAAACAAAGGTCACATGTCT-GCGTGGATATGGGACATACCCGGATGGGCAGGCCGTATGGC
* **
55902521 CACACACGCCCTTGTCCTGACCCCATGTAACTCTCTGTCTTGTAACCCATGAACAAATTGAGGTC
130 CACACACGCCCCTGTCCTGACCCCATGTAACTCTCTAACTTGTAACCCATGAACAAATTGAGGTC
*
55902586 ACACGGCCAAATCACACTCCCGT
195 ACACGGCCAAATCACACGCCCGT
55902609 GTGCTAGGCT
Statistics
Matches: 193, Mismatches: 23, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
217 1 0.01
218 192 0.99
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (218 bp):
TTTGGGAGTAGTCCAAGACAAAACCGAGAACTTCAAAAATTTTCACGAAACTTAGAAAATTTTTC
CACTAAACAAAGGTCACATGTCTGCGTGGATATGGGACATACCCGGATGGGCAGGCCGTATGGCC
ACACACGCCCCTGTCCTGACCCCATGTAACTCTCTAACTTGTAACCCATGAACAAATTGAGGTCA
CACGGCCAAATCACACGCCCGTA
Found at i:55905676 original size:48 final size:48
Alignment explanation
Indices: 55905605--55905874 Score: 244
Period size: 48 Copynumber: 5.6 Consensus size: 48
55905595 TATGGGTGCG
*
55905605 AGTGTAAGACTATGTCTGGGACATGGCATCGGCCACATTATTAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATTAGAGCC
* * *** * *
55905653 AGTGTAAGACTATGTTTGGGACATGGCATCAGTG-TTGA-TATGT-GTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-GCCACATTAT-TAGAGCC
* * * *
55905701 AGTGTAAAACCATGTTTGGTACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATTAGAGCC
* * * **** * *
55905749 AGTATAAGACCATGTCTAGGACATAGCATCGGTGTTGA-TATGT-GTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CCACATTAT-TAGAGCC
* *
55905797 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATTAGAGCC
*
55905845 AGTGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
55905875 AGCATTTTAC
Statistics
Matches: 173, Mismatches: 39, Indels: 20
0.75 0.17 0.09
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 164 0.95
49 4 0.02
50 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATTAGAGCC
Found at i:55905757 original size:96 final size:96
Alignment explanation
Indices: 55905590--55905876 Score: 448
Period size: 96 Copynumber: 3.0 Consensus size: 96
55905580 ATGACATTTG
* * * *
55905590 GTTGATATGGGTGCGAGTGTAAGACTATGTCTGGGACATGGCATCGGCCACATTATTAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
*
55905655 TGTAAGACTATGTTTGGGACATGGCATCAGT
66 TGTAAGACCATGTTTGGGACATGGCATCAGT
* * *
55905686 GTTGATATGTGTGCTAGTGTAAAACCATGTTTGGTACATGGCATCGGCCACATTATGAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
* * * * *
55905751 TATAAGACCATGTCTAGGACATAGCATCGGT
66 TGTAAGACCATGTTTGGGACATGGCATCAGT
*
55905782 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
55905847 TGTAAGACCATGTTTGGGACATGGCATCAG
66 TGTAAGACCATGTTTGGGACATGGCATCAG
55905877 CATTTTACCC
Statistics
Matches: 169, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 169 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (96 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
TGTAAGACCATGTTTGGGACATGGCATCAGT
Found at i:55909982 original size:43 final size:43
Alignment explanation
Indices: 55909907--55910138 Score: 342
Period size: 43 Copynumber: 5.4 Consensus size: 43
55909897 GATAAATCCC
* * *
55909907 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
55909948 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCATGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
55909991 GCAGGCTTAGTGCCAGTGATGTGTATTCGGGCCTTTGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
55910034 GCAGCCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
55910077 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
55910120 GCAGGCGTAGTACCGGTGA
1 GCAGGCTTAGTGCCGGTGA
55910139 AATGATATGT
Statistics
Matches: 172, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
41 15 0.09
42 2 0.01
43 155 0.90
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:55913986 original size:46 final size:46
Alignment explanation
Indices: 55913931--55914111 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
55913921 TAGGATGGTT
55913931 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
55913977 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
55914023 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
55914070 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55914112 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:55914092 original size:93 final size:93
Alignment explanation
Indices: 55913933--55914103 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
55913923 GGATGGTTGA
* *
55913933 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55913998 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55914026 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55914091 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55914104 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55917099 original size:15 final size:15
Alignment explanation
Indices: 55917060--55917138 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
55917050 GTATCTTGGG
*
55917060 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
55917075 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
55917090 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
55917104 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
55917119 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
55917133 TTTCTT
1 TTTCTT
55917139 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:55917123 original size:29 final size:29
Alignment explanation
Indices: 55917051--55917137 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
55917041 CATAGTATCG
* * * *
55917051 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
55917081 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
55917110 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
55917138 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:55919568 original size:46 final size:46
Alignment explanation
Indices: 55919513--55919693 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
55919503 TAGGATGGTT
55919513 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
55919559 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
55919605 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
55919652 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55919694 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:55919674 original size:93 final size:93
Alignment explanation
Indices: 55919515--55919685 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
55919505 GGATGGTTGA
* *
55919515 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55919580 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55919608 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55919673 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55919686 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55921689 original size:95 final size:95
Alignment explanation
Indices: 55921570--55921852 Score: 413
Period size: 95 Copynumber: 3.0 Consensus size: 95
55921560 TGAACTATAC
**
55921570 AAGGCTTTCAGCCTTTCTACGATACTTATGGCTTATAGCCGTTCTGTTAACTGGCAGCGTTGCTG
1 AAGGCTTTCAGCCTTTCTGTGATACTTATGGCTTATAGCCGTTCTGTTAACTGGCAGCGTTGCTG
* *
55921635 TGATATTTACGGCCTGTAGTTGTCCTGTAT
66 CGATATTTACGGCCTGTAGTCGTCCTGTAT
* *** * * * *
55921665 AAGGCTTTTAGCCTTTCTGTGATACTTATGGCTTATAGATTTTCTATTAAATGGCAGCATTACTG
1 AAGGCTTTCAGCCTTTCTGTGATACTTATGGCTTATAGCCGTTCTGTTAACTGGCAGCGTTGCTG
*
55921730 CGATATTTACGGCCTGTAGTCGTTCTGTAT
66 CGATATTTACGGCCTGTAGTCGTCCTGTAT
* *
55921760 AAGGCTTTCAGCCTTTTTGTGATACTTATGGCTTATAGCCGTTCTGTTAACTGGCAGTGTTGCTG
1 AAGGCTTTCAGCCTTTCTGTGATACTTATGGCTTATAGCCGTTCTGTTAACTGGCAGCGTTGCTG
* *
55921825 CGATATTTACGGCCTTTAGCCGTCCTGT
66 CGATATTTACGGCCTGTAGTCGTCCTGT
55921853 CTACAACGTT
Statistics
Matches: 162, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
95 162 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (95 bp):
AAGGCTTTCAGCCTTTCTGTGATACTTATGGCTTATAGCCGTTCTGTTAACTGGCAGCGTTGCTG
CGATATTTACGGCCTGTAGTCGTCCTGTAT
Found at i:55921875 original size:22 final size:22
Alignment explanation
Indices: 55921847--55921900 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
55921837 CCTTTAGCCG
*
55921847 TCCTGTCTACAACGTTGAGTCA
1 TCCTGTCTACAACGTTAAGTCA
* **
55921869 TCCTGTCAATGACGTTAAGTCA
1 TCCTGTCTACAACGTTAAGTCA
*
55921891 TCCTATCTAC
1 TCCTGTCTAC
55921901 GGCGTAGAGC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (22 bp):
TCCTGTCTACAACGTTAAGTCA
Found at i:55925078 original size:49 final size:49
Alignment explanation
Indices: 55924923--55925121 Score: 190
Period size: 49 Copynumber: 4.1 Consensus size: 49
55924913 CCAATACCCA
* * *
55924923 TTCTGTACAAGGCTTTCAGCCTTTCTACGATACTTATAGCTTATAGTCG
1 TTCTGTATAAGGCTTTCAGCCTTTCTGCGATACTTATAGCCTATAGTCG
* * * * * * * *
55924972 TTCTGT-TAA---TTGGCAGCGTTGCTGCAATATTTTTAGCCTGTAGTTG
1 TTCTGTATAAGGCTT-TCAGCCTTTCTGCGATACTTATAGCCTATAGTCG
* * *
55925018 TCCTGTATAAGGCTTTCAGCCTTTCTGTGATACTTACAGCCTATAGTCG
1 TTCTGTATAAGGCTTTCAGCCTTTCTGCGATACTTATAGCCTATAGTCG
* * * * *
55925067 TTCTGTATAAGGCTTTCAGCCTTTTTGTGATACTTATGGCTTATAGCCG
1 TTCTGTATAAGGCTTTCAGCCTTTCTGCGATACTTATAGCCTATAGTCG
55925116 TTCTGT
1 TTCTGT
55925122 TAACTGGCAG
Statistics
Matches: 117, Mismatches: 28, Indels: 10
0.75 0.18 0.06
Matches are distributed among these distances:
45 2 0.02
46 29 0.25
47 3 0.03
48 2 0.02
49 79 0.68
50 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (49 bp):
TTCTGTATAAGGCTTTCAGCCTTTCTGCGATACTTATAGCCTATAGTCG
Found at i:55925232 original size:22 final size:22
Alignment explanation
Indices: 55925161--55925233 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
55925151 GCCTTTAGCT
*
55925161 GTCCTATCTACGACGTTAAGTC
1 GTCCTGTCTACGACGTTAAGTC
* * *
55925183 ATCCTTTCTATGACGTTAAGTC
1 GTCCTGTCTACGACGTTAAGTC
* *
55925205 GTCCTGTCTACGGCGTTGAGTC
1 GTCCTGTCTACGACGTTAAGTC
55925227 GTCCTGT
1 GTCCTGT
55925234 TGACTTAGTG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (22 bp):
GTCCTGTCTACGACGTTAAGTC
Found at i:55928289 original size:46 final size:46
Alignment explanation
Indices: 55928241--55928488 Score: 201
Period size: 46 Copynumber: 5.3 Consensus size: 46
55928231 GCCTTTCTAC
*
55928241 GATATTTATGGCTTATAGCTGTTCTGTTAACTGGCAGCGTTGCTAC
1 GATATTTATGGCTTATAGCTGTTCTGTTAACTGGCAGCGTTGCTAT
* * * * ** * * *
55928287 GATATTTATGGCCTGTAGTTGTCCTGTATAAGGCTTTCAGCCTTTCTGT
1 GATATTTATGGCTTATAGCTGTTCTGT-TAA--CTGGCAGCGTTGCTAT
* * * * *
55928336 GATACTTACGGCTTATAGCAGTTCTGTTAA-TAGGCAACGTTGCTGT
1 GATATTTATGGCTTATAGCTGTTCTGTTAACT-GGCAGCGTTGCTAT
* * ** * *
55928382 GATATTTACGGCTTGTAGCTGTTCTGTATAAGGCTTTCAGCCTTTCTAT
1 GATATTTATGGCTTATAGCTGTTCTGT-TAA--CTGGCAGCGTTGCTAT
* * * *
55928431 GGTACTTATGGCTTATAGCCGTTCTGTTAACTGGCAGCGTTGCTGT
1 GATATTTATGGCTTATAGCTGTTCTGTTAACTGGCAGCGTTGCTAT
55928477 GATATTTATGGC
1 GATATTTATGGC
55928489 CTTTAACCAT
Statistics
Matches: 151, Mismatches: 43, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
45 1 0.01
46 77 0.51
47 6 0.04
48 6 0.04
49 60 0.40
50 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.40
Consensus pattern (46 bp):
GATATTTATGGCTTATAGCTGTTCTGTTAACTGGCAGCGTTGCTAT
Found at i:55928378 original size:95 final size:95
Alignment explanation
Indices: 55928201--55928490 Score: 411
Period size: 95 Copynumber: 3.1 Consensus size: 95
55928191 AGAAGTGGAC
* * * * * *
55928201 GGCCAGTAGCCGTTCTGTATAAGGCTTTCAGCCTTTCTACGATATTTATGGCTTATAGCTGTTCT
1 GGCCTGTAGCTGTCCTGTATAAGGCTTTCAGCCTTTCTATGATACTTATGGCTTATAGCAGTTCT
**
55928266 GTTAACTGGCAGCGTTGCTACGATATTTAT
66 GTTAACTGGCAGCGTTGCTGTGATATTTAT
* * *
55928296 GGCCTGTAGTTGTCCTGTATAAGGCTTTCAGCCTTTCTGTGATACTTACGGCTTATAGCAGTTCT
1 GGCCTGTAGCTGTCCTGTATAAGGCTTTCAGCCTTTCTATGATACTTATGGCTTATAGCAGTTCT
* *
55928361 GTTAA-TAGGCAACGTTGCTGTGATATTTAC
66 GTTAACT-GGCAGCGTTGCTGTGATATTTAT
* * * *
55928391 GGCTTGTAGCTGTTCTGTATAAGGCTTTCAGCCTTTCTATGGTACTTATGGCTTATAGCCGTTCT
1 GGCCTGTAGCTGTCCTGTATAAGGCTTTCAGCCTTTCTATGATACTTATGGCTTATAGCAGTTCT
55928456 GTTAACTGGCAGCGTTGCTGTGATATTTAT
66 GTTAACTGGCAGCGTTGCTGTGATATTTAT
55928486 GGCCT
1 GGCCT
55928491 TTAACCATCC
Statistics
Matches: 170, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
94 1 0.01
95 168 0.99
96 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (95 bp):
GGCCTGTAGCTGTCCTGTATAAGGCTTTCAGCCTTTCTATGATACTTATGGCTTATAGCAGTTCT
GTTAACTGGCAGCGTTGCTGTGATATTTAT
Found at i:55936813 original size:19 final size:20
Alignment explanation
Indices: 55936789--55936826 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
55936779 GGTACCACCA
55936789 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
55936808 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
55936827 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:55937197 original size:46 final size:46
Alignment explanation
Indices: 55937051--55937221 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
55937041 AACCCGCCCC
* * *
55937051 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
55937096 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT---
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
55937143 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
55937188 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55937222 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
45 34 0.32
46 58 0.55
47 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:55937212 original size:92 final size:91
Alignment explanation
Indices: 55937056--55937224 Score: 302
Period size: 92 Copynumber: 1.8 Consensus size: 91
55937046 GCCCCTAAGT
*
55937056 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
55937121 GAGTTCGGATGCCTAGTTACATTCAC
66 GAGTTCGGATGCCTAGTTACATTCAC
* *
55937147 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55937212 CGAGTTCGGATGC
65 CGAGTTCGGATGC
55937225 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 27 0.36
92 47 0.64
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTCAC
Found at i:55937240 original size:46 final size:46
Alignment explanation
Indices: 55937053--55937240 Score: 144
Period size: 46 Copynumber: 4.1 Consensus size: 46
55937043 CCCGCCCCTA
* * * *
55937053 AGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
55937097 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * *
55937145 A-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
55937190 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
55937236 AGTGA
1 AGTGA
55937241 CATGTCACTT
Statistics
Matches: 115, Mismatches: 11, Indels: 33
0.72 0.07 0.21
Matches are distributed among these distances:
44 8 0.07
45 33 0.29
46 65 0.57
47 1 0.01
48 3 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:55944392 original size:19 final size:20
Alignment explanation
Indices: 55944368--55944405 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
55944358 GGTACCACCA
55944368 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
55944387 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
55944406 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:55944745 original size:93 final size:93
Alignment explanation
Indices: 55944635--55944805 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
55944625 GCCCCTAAGT
* *
55944635 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
55944700 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
55944728 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
55944793 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55944806 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55944802 original size:46 final size:46
Alignment explanation
Indices: 55944630--55944802 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
55944620 AACCCGCCCC
* * * *
55944630 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
55944676 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
55944724 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
55944769 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55944803 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:55948558 original size:38 final size:39
Alignment explanation
Indices: 55948516--55948805 Score: 387
Period size: 38 Copynumber: 7.5 Consensus size: 39
55948506 ATAATGAGAA
**
55948516 TTATATCC-GGCTAAGTCCCGAAGGCATTCGTGCTTATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
55948554 TTATATCCGGGATAA-CCCCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
55948592 TTATATCCGGGCTAAGTCCCGAAGGCATT-GTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
55948630 TTATATTCGGGCTAAG-CCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
55948668 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
55948707 TTATATCCGGGCTAAG-CCCGAAGTCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
55948745 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTG-TGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
55948783 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
55948806 CATGCTTTGT
Statistics
Matches: 230, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
37 12 0.05
38 137 0.60
39 74 0.32
40 7 0.03
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:55948756 original size:153 final size:152
Alignment explanation
Indices: 55948516--55948795 Score: 436
Period size: 153 Copynumber: 1.8 Consensus size: 152
55948506 ATAATGAGAA
* *
55948516 TTATATCCGGCTAAGTCCCGAAGGCATTCGTGCTTATGTTATATCCGGGATAACCCCGAAGGCAT
1 TTATATCCGGCTAAGCCCCGAAGGCATTCGTGCTGATGTTATATCCGGGATAACCCCGAAGGCAT
*
55948581 TCGTGCTAGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTGTGCTGGTGTTATATTCGGGCTAA
66 TCGTGCTAGTGTTATATCCGGGCTAAAGTCCCGAAGGCATTGTG-TGGTATTATATTCGGGCTAA
55948645 GCCCGAAGGCATTCGTGCTGGTG
130 GCCCGAAGGCATTCGTGCTGGTG
* * * *
55948668 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCGAAGTCA
1 TTATATCC-GGCTAAGCCCCGAAGGCATTCGTGCTGATGTTATATCCGGGATAACCCCGAAGGCA
* * * *
55948733 TTTGTGCTGGTGTTATATCCGGGCTAAAGTCCCGTAGGCTTTGTGTGGTATTATATTCGGGCT
65 TTCGTGCTAGTGTTATATCCGGGCTAAAGTCCCGAAGGCATTGTGTGGTATTATATTCGGGCT
55948796 TAAAGTCCCG
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
152 8 0.07
153 90 0.78
154 17 0.15
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (152 bp):
TTATATCCGGCTAAGCCCCGAAGGCATTCGTGCTGATGTTATATCCGGGATAACCCCGAAGGCAT
TCGTGCTAGTGTTATATCCGGGCTAAAGTCCCGAAGGCATTGTGTGGTATTATATTCGGGCTAAG
CCCGAAGGCATTCGTGCTGGTG
Found at i:55953393 original size:39 final size:39
Alignment explanation
Indices: 55953339--55953661 Score: 454
Period size: 39 Copynumber: 8.3 Consensus size: 39
55953329 TAATGGAGAA
55953339 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
55953378 TTATATCCGGGCTAAG-CCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCC-CGAAGGCATTCGTGCTGGTG
* *
55953417 TTATATCCAGGCTAAGTCCCGAAGGCATTCGTGATGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
55953456 TTATATCCGGGCTAAGTCCCAAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
55953495 TTATATCCAGGCTAAG-CCCTAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCC-GAAGGCATTCGTGCTGGTG
* * *
55953534 TTATATCTGGGCTAAGCCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
55953573 TTATATCCGAGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
55953612 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCAGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
55953651 TTATATTCGGG
1 TTATATCCGGG
55953662 TCCCGTATGC
Statistics
Matches: 259, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
38 5 0.02
39 238 0.92
40 16 0.06
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:55966183 original size:40 final size:40
Alignment explanation
Indices: 55966126--55966310 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
55966116 TCGAATGATG
* * * *
55966126 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
55966166 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
55966206 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
55966246 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
55966286 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
55966311 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
39 28 0.21
40 96 0.73
41 8 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55966328 original size:79 final size:80
Alignment explanation
Indices: 55966160--55966343 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 80
55966150 GTGCTAAGTG
**
55966160 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
1 ACTATATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
**
55966225 GCATTTGTGCGAGTT
66 GCATTTGAACGAGTT
* * *
55966240 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATAA-CCGGGCTATG-TCCCG
1 ACTATATCCGGGTTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCG
*
55966301 AAGGTATTTGAACGAG-T
63 AAGGCATTTGAACGAGTT
55966318 AGCTATATCC-GGTTAA-ACTCCGAAGG
1 A-CTATATCCGGGTTAAGA-TCCGAAGG
55966344 TACGTGATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 14
0.79 0.08 0.12
Matches are distributed among these distances:
78 16 0.18
79 38 0.43
80 35 0.39
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
ACTATATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
GCATTTGAACGAGTT
Found at i:55973193 original size:40 final size:39
Alignment explanation
Indices: 55973028--55973211 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
55973018 AAATTGAATG
* * *
55973028 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
55973068 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
55973108 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
55973148 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
55973187 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
55973212 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:55973236 original size:80 final size:81
Alignment explanation
Indices: 55973068--55973256 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
55973058 GCTGGAAATT
* * * *
55973068 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
55973133 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
55973149 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
55973212 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
55973228 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
55973257 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:55981311 original size:40 final size:39
Alignment explanation
Indices: 55981146--55981329 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
55981136 AAATTGAATG
* * *
55981146 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
55981186 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
55981226 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
55981266 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
55981305 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
55981330 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:55981354 original size:80 final size:81
Alignment explanation
Indices: 55981186--55981374 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
55981176 GCTGGAAATT
* * * *
55981186 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
55981251 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
55981267 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
55981330 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
55981346 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
55981375 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:55985793 original size:40 final size:39
Alignment explanation
Indices: 55985623--55985804 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 39
55985613 ATGATGTCCG
* ** *
55985623 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGCGACTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
*
55985662 GGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
55985702 GGACCAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
55985742 GGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
* *
55985782 GAGCTATGTCCCGAAGGTATTTG
1 G-GCTAAGTCCCGAAGGCATTTG
55985805 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
39 4 0.03
40 107 0.87
41 12 0.10
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:55991222 original size:19 final size:20
Alignment explanation
Indices: 55991180--55991228 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
55991170 TCATGCTTTC
*
55991180 TATTCACATTTTCATATTCA
1 TATTCACATTTTCATAATCA
55991200 -ATTCACATTTTCA-AATCA
1 TATTCACATTTTCATAATCA
55991218 TATTCCACATT
1 TATT-CACATT
55991229 CGCATTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 4 0.15
19 16 0.62
20 6 0.23
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTCACATTTTCATAATCA
Found at i:56011309 original size:34 final size:34
Alignment explanation
Indices: 56011268--56011335 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
56011258 TTATCATGTA
56011268 TGAGTATGAATTGTATCTGAATGGTTGTATAGGC
1 TGAGTATGAATTGTATCTGAATGGTTGTATAGGC
56011302 TGAGTATGAATTGTATCTGAATGGTTGTATAGGC
1 TGAGTATGAATTGTATCTGAATGGTTGTATAGGC
56011336 CTCTATATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.38
Consensus pattern (34 bp):
TGAGTATGAATTGTATCTGAATGGTTGTATAGGC
Found at i:56012987 original size:92 final size:92
Alignment explanation
Indices: 56012822--56013017 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
56012812 GGGTGATCGT
* * * *
56012822 CCGATAACACACCAGATGTACATAGTGCAAAGCCTGTAGGCTAAATTTTCTCTCCCGATAATAAG
1 CCGATAACACACCAGATGCACATAGTGCAAAGCCTGTAGGCTAAATATTCTCCCCCGATAACAAG
56012887 CCAAATTGCTCATAAGAGCTATTCCAA
66 CCAAATTGCTCATAAGAGCTATTCCAA
*
56012914 CCGATAACACACCAGATGCACATAGTGCAAAGCAC-GTAGGCTAAATATTCTCCCCCGATAACAC
1 CCGATAACACACCAGATGCACATAGTGCAAAGC-CTGTAGGCTAAATATTCTCCCCCGATAACAA
* ** *
56012978 GCCAGATTGCTCATAAGATTTATTTCAA
65 GCCAAATTGCTCATAAGAGCTATTCCAA
*
56013006 CTGATAACACAC
1 CCGATAACACAC
56013018 TAGAATCATC
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
92 92 0.99
93 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (92 bp):
CCGATAACACACCAGATGCACATAGTGCAAAGCCTGTAGGCTAAATATTCTCCCCCGATAACAAG
CCAAATTGCTCATAAGAGCTATTCCAA
Found at i:56018029 original size:33 final size:33
Alignment explanation
Indices: 56017987--56018053 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
56017977 AAGAAAAAGA
56017987 TAGTGGACTAAATCAATATAGTTGATCGTATTT
1 TAGTGGACTAAATCAATATAGTTGATCGTATTT
56018020 TAGTGGACTAAATCAATATAGTTGATCGTATTT
1 TAGTGGACTAAATCAATATAGTTGATCGTATTT
56018053 T
1 T
56018054 GTTTCGAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (33 bp):
TAGTGGACTAAATCAATATAGTTGATCGTATTT
Found at i:56018372 original size:55 final size:53
Alignment explanation
Indices: 56018182--56018431 Score: 244
Period size: 55 Copynumber: 4.7 Consensus size: 53
56018172 ATGCGGGTAC
* * * * *
56018182 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* *
56018231 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
56018284 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * *
56018339 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
56018392 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTA
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA
56018432 TTCTTAAACC
Statistics
Matches: 168, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
49 35 0.21
52 2 0.01
53 47 0.28
54 14 0.08
55 68 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:56018373 original size:108 final size:110
Alignment explanation
Indices: 56018229--56018429 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
56018219 ATCCTTTTGA
* *
56018229 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
56018292 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
56018337 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
56018402 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
56018430 TATTCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:56021967 original size:55 final size:53
Alignment explanation
Indices: 56021880--56022134 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 53
56021870 ATTAGCGTTT
*
56021880 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * * * *
56021935 AAGGAAATCATGTAATACCATGTCAAGACATGGCATTGATAACTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
56021990 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
*
56022043 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* * *
56022092 AAGGATACCACGTAAGACCATGACAAGTCATGGTAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAG
56022135 GTACCCGCGT
Statistics
Matches: 165, Mismatches: 28, Indels: 20
0.77 0.13 0.09
Matches are distributed among these distances:
49 39 0.24
52 7 0.04
53 39 0.24
54 12 0.07
55 64 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:56022356 original size:16 final size:16
Alignment explanation
Indices: 56022335--56022365 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56022325 ATAAATTTGG
56022335 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
56022351 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
56022366 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:56025089 original size:21 final size:21
Alignment explanation
Indices: 56025064--56025103 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
56025054 ATAAATTTAC
56025064 TAAATATAATATTTACATAAT
1 TAAATATAATATTTACATAAT
*
56025085 TAAATATATTATTTACATA
1 TAAATATAATATTTACATA
56025104 TTTGACAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATATAATATTTACATAAT
Found at i:56030066 original size:59 final size:54
Alignment explanation
Indices: 56029993--56030127 Score: 166
Period size: 54 Copynumber: 2.4 Consensus size: 54
56029983 TAGGGTCTAA
* *
56029993 ATTTAGCCTGGACTGGTAATTCAGATCCAA-ACTC-ATTAGAGTAATTGTCATTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGA--CAATACTCTA-T-GAGT--TTAT-ATTGCAGGGG
*
56030052 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATGAGTTTATATTGCAGGGG
56030106 ATTTAGCCTGGACTGGTAATCC
1 ATTTAGCCTGGACTGGTAATCC
56030128 TGCTGCAAGG
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
54 32 0.45
55 3 0.04
57 7 0.10
58 5 0.07
59 24 0.34
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATGAGTTTATATTGCAGGGG
Found at i:56031883 original size:33 final size:33
Alignment explanation
Indices: 56031846--56031912 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
56031836 ACAAGTTCTT
56031846 CCTATAGTTGTTTCAATTTCCCATAATAAGTCA
1 CCTATAGTTGTTTCAATTTCCCATAATAAGTCA
56031879 CCTATAGTTGTTTCAATTTCCCATAATAAGTCA
1 CCTATAGTTGTTTCAATTTCCCATAATAAGTCA
56031912 C
1 C
56031913 AATTGGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (33 bp):
CCTATAGTTGTTTCAATTTCCCATAATAAGTCA
Found at i:56033157 original size:17 final size:18
Alignment explanation
Indices: 56033137--56033170 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56033127 AATTTATAAT
56033137 TTTATATTATTT-AAAAC
1 TTTATATTATTTCAAAAC
*
56033154 TTTATTTTATTTCAAAA
1 TTTATATTATTTCAAAA
56033171 TAAATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATATTATTTCAAAAC
Found at i:56033306 original size:21 final size:21
Alignment explanation
Indices: 56033240--56033304 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
56033230 TTAAAAATAA
* *
56033240 AAAAACTTTAAAAATTA-TTT
1 AAAAATTTTAAAAAATATTTT
56033260 --AAATTTTAAAAAATATTTT
1 AAAAATTTTAAAAAATATTTT
* *
56033279 AAAAATTTTTAAAATTATTTCT
1 AAAAATTTTAAAAAATATTT-T
56033301 AAAA
1 AAAA
56033305 TTAAATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 13 0.35
19 3 0.08
21 16 0.43
22 5 0.14
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAAATTTTAAAAAATATTTT
Found at i:56033373 original size:24 final size:24
Alignment explanation
Indices: 56033346--56033448 Score: 61
Period size: 24 Copynumber: 4.3 Consensus size: 24
56033336 AATAAAAATA
56033346 AAAATTATTTAAAAATTTATTTCT
1 AAAATTATTTAAAAATTTATTTCT
* ** *
56033370 AAAA-T-TTTAAAAGTATTAGATAT
1 AAAATTATTTAAAAAT-TTATTTCT
* * *
56033393 -ATATTATTTATAAATTTTAAAATT-T
1 AAAATTATTTA-AAAATTT--ATTTCT
* *
56033418 AAGATTATTTAAAAATTTATTCCT
1 AAAATTATTTAAAAATTTATTTCT
56033442 AAAATTA
1 AAAATTA
56033449 AAATTAAAAT
Statistics
Matches: 58, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
22 10 0.17
23 9 0.16
24 17 0.29
25 11 0.19
26 11 0.19
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (24 bp):
AAAATTATTTAAAAATTTATTTCT
Found at i:56033450 original size:70 final size:68
Alignment explanation
Indices: 56033278--56033451 Score: 210
Period size: 72 Copynumber: 2.5 Consensus size: 68
56033268 AAAAATATTT
** *
56033278 TAAAAATT-TTT-AAAA-TTATTTCTAAAATTAAATTTTATTAGATATATATTATTTCTAAAATA
1 TAAAAATTATTTAAAAATTTATTTCTAAAATTAAA-AGTATTAGATATATATTATTTATAAAATA
56033340 AAAA
65 AAAA
56033344 TAAAAATTATTTAAAAATTTATTTCTAAAATTTTAAAAGTATTAGATATATATTATTTATAAATT
1 TAAAAATTATTTAAAAATTTATTTCTAAAA--TTAAAAGTATTAGATATATATTATTTATAAA--
* *
56033409 TTAAAAT
62 ATAAAAA
* * *
56033416 TTAAGATTATTTAAAAATTTATTCCTAAAATTAAAA
1 TAAAAATTATTTAAAAATTTATTTCTAAAATTAAAA
56033452 TTAAAATTTA
Statistics
Matches: 93, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
66 8 0.09
67 3 0.03
68 4 0.04
69 12 0.13
70 29 0.31
71 5 0.05
72 32 0.34
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.45
Consensus pattern (68 bp):
TAAAAATTATTTAAAAATTTATTTCTAAAATTAAAAGTATTAGATATATATTATTTATAAAATAA
AAA
Found at i:56034417 original size:3 final size:3
Alignment explanation
Indices: 56034411--56034437 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
56034401 TTCATGTTCG
56034411 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
56034438 TGAATCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:56039939 original size:38 final size:38
Alignment explanation
Indices: 56039897--56039973 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
56039887 TATTATCCGT
56039897 AATATAGTAAAATAAGAAAATAAAGTGACAAAAAGGGA
1 AATATAGTAAAATAAGAAAATAAAGTGACAAAAAGGGA
56039935 AATATAGTAAAATAAGAAAATAAAGTGACAAAAAGGGA
1 AATATAGTAAAATAAGAAAATAAAGTGACAAAAAGGGA
56039973 A
1 A
56039974 TTTTTGAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.64, C:0.03, G:0.18, T:0.16
Consensus pattern (38 bp):
AATATAGTAAAATAAGAAAATAAAGTGACAAAAAGGGA
Found at i:56042607 original size:46 final size:46
Alignment explanation
Indices: 56042560--56042726 Score: 237
Period size: 46 Copynumber: 3.6 Consensus size: 46
56042550 GTTCTCTGAT
** * *
56042560 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
56042606 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGTAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
56042652 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
56042698 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
56042727 CACTATAGCA
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 108 0.99
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:56043043 original size:16 final size:17
Alignment explanation
Indices: 56043022--56043054 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56043012 ATGATGGTGC
56043022 ATGAAAT-ACTGATATA
1 ATGAAATGACTGATATA
*
56043038 ATGAAATGATTGATATA
1 ATGAAATGACTGATATA
56043055 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (17 bp):
ATGAAATGACTGATATA
Found at i:56049698 original size:14 final size:14
Alignment explanation
Indices: 56049679--56049715 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
56049669 AACACTATCA
56049679 AATTTTTCAAAAAT
1 AATTTTTCAAAAAT
*
56049693 AATTTTTCTAAAAT
1 AATTTTTCAAAAAT
*
56049707 ACTTTTTCA
1 AATTTTTCA
56049716 CAACACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTTTTCAAAAAT
Found at i:56049824 original size:20 final size:19
Alignment explanation
Indices: 56049801--56049846 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
56049791 TTTTTAGGGC
*
56049801 TTTTTAGAATTTTTATGAT
1 TTTTTAGAATTTTAATGAT
**
56049820 ATTTTGGGAATTTTAATGAT
1 -TTTTTAGAATTTTAATGAT
56049840 TTTTTAG
1 TTTTTAG
56049847 TTTTTATATT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (19 bp):
TTTTTAGAATTTTAATGAT
Found at i:56049974 original size:20 final size:19
Alignment explanation
Indices: 56049931--56049974 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
56049921 GTTTTCAATT
*
56049931 TTTTTTAGATTTTTTTGGA
1 TTTTTTAGATTTCTTTGGA
* *
56049950 ATTTTTATGATTTCTTTGTA
1 TTTTTTA-GATTTCTTTGGA
56049970 TTTTT
1 TTTTT
56049975 AATAATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.16, C:0.02, G:0.11, T:0.70
Consensus pattern (19 bp):
TTTTTTAGATTTCTTTGGA
Found at i:56051140 original size:13 final size:13
Alignment explanation
Indices: 56051122--56051146 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56051112 CTATTTTTGG
56051122 ATAAAAAATAAAA
1 ATAAAAAATAAAA
56051135 ATAAAAAATAAA
1 ATAAAAAATAAA
56051147 GTGCATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:56051773 original size:14 final size:14
Alignment explanation
Indices: 56051754--56051780 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56051744 AACTAATAAA
56051754 TTTAATAGATTTAT
1 TTTAATAGATTTAT
56051768 TTTAATAGATTTA
1 TTTAATAGATTTA
56051781 ATCCAAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (14 bp):
TTTAATAGATTTAT
Found at i:56052243 original size:24 final size:24
Alignment explanation
Indices: 56052216--56052313 Score: 69
Period size: 24 Copynumber: 4.2 Consensus size: 24
56052206 CTACGAATTG
56052216 TATTTATAGAAATGTCGCAAACTA
1 TATTTATAGAAATGTCGCAAACTA
* * * *
56052240 TA-TTATAAAATATTTTGCGAACTA
1 TATTTATAGAA-ATGTCGCAAACTA
* *
56052264 TATTTACAGAAATG-CTGCTAACTA
1 TATTTATAGAAATGTC-GCAAACTA
* * *
56052288 TA-TTGTAG-AATGTCACAAACTG
1 TATTTATAGAAATGTCGCAAACTA
56052310 TATT
1 TATT
56052314 GTAGAATTAC
Statistics
Matches: 55, Mismatches: 14, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
22 11 0.20
23 13 0.24
24 25 0.45
25 6 0.11
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (24 bp):
TATTTATAGAAATGTCGCAAACTA
Found at i:56052420 original size:23 final size:23
Alignment explanation
Indices: 56052345--56052427 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 23
56052335 AAAATATTGT
* *
56052345 GAATTGTGTTGTAGAATTACTAC
1 GAATTGTATTGTAGAATTACTGC
* * * * * * *
56052368 AAACTGTATTTATAAAAATAATGT
1 GAATTGTA-TTGTAGAATTACTGC
56052392 GAATTGTATTGTAGAATTACTGC
1 GAATTGTATTGTAGAATTACTGC
56052415 GAATTGTATTGTA
1 GAATTGTATTGTA
56052428 ATACATAAGA
Statistics
Matches: 43, Mismatches: 16, Indels: 2
0.70 0.26 0.03
Matches are distributed among these distances:
23 28 0.65
24 15 0.35
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (23 bp):
GAATTGTATTGTAGAATTACTGC
Found at i:56052530 original size:54 final size:53
Alignment explanation
Indices: 56052435--56052803 Score: 308
Period size: 54 Copynumber: 6.8 Consensus size: 53
56052425 GTAATACATA
* * * * * * *
56052435 AGATTC-TAAAAATCTTGTATGCAAAAGATCCTGATCATAAATCAACGGACCGCG
1 AGATTCGT-AAAATC-TGTAAGTAAAAGGTCATGATCGTAAATCAGCGGACCGTG
* * * * * *
56052489 AGATTCATAAAATCATGTAAGTGAAAGGTCGTGATTGTAAATCAGCTGACCATG
1 AGATTCGTAAAATC-TGTAAGTAAAAGGTCATGATCGTAAATCAGCGGACCGTG
* * * ** ** * *
56052543 AAATTCATAAAATCTGTAAGTAAAATGTCATGATTTTAAATCAGTTGACTGTA
1 AGATTCGTAAAATCTGTAAGTAAAAGGTCATGATCGTAAATCAGCGGACCGTG
* * *
56052596 AGATTCGTAAAATCTCTAAGTAAAAGGTCATGATCGTGAATCAGCGGACCGTA
1 AGATTCGTAAAATCTGTAAGTAAAAGGTCATGATCGTAAATCAGCGGACCGTG
** * * * *
56052649 AGATTCGTAAAATCTCGTAAGTAAAAGGTTGTGATCATAAATCAACGGACTGCG
1 AGATTCGTAAAATCT-GTAAGTAAAAGGTCATGATCGTAAATCAGCGGACCGTG
* * * * * *
56052703 AGATTCGTTAAATCTCGCATGTAAAAAAGGTCATGATTGTAAATCAGTGGATCGTG
1 AGATTCGTAAAATCT-GTAAGT--AAAAGGTCATGATCGTAAATCAGCGGACCGTG
**
56052759 AGATTCGTAAAATCCCATAAGTAAAAGGTCATGATCGTAAATCAG
1 AGATTCGTAAAAT-CTGTAAGTAAAAGGTCATGATCGTAAATCAG
56052804 TAGACCGTAA
Statistics
Matches: 252, Mismatches: 58, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
53 89 0.35
54 123 0.49
55 1 0.00
56 38 0.15
57 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (53 bp):
AGATTCGTAAAATCTGTAAGTAAAAGGTCATGATCGTAAATCAGCGGACCGTG
Found at i:56052804 original size:54 final size:53
Alignment explanation
Indices: 56052488--56052804 Score: 253
Period size: 53 Copynumber: 5.9 Consensus size: 53
56052478 AACGGACCGC
* ** * * * *
56052488 GAGATTCATAAAATCATGTAAGTGAAAGGTCGTGATTGTAAATCAGCT-GACCAT
1 GAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATCGTAAATCAG-TGGA-CGT
* * * * ** *
56052542 GAAATTCATAAAAT-CTGTAAGTAAAATGTCATGATTTTAAATCAGTTGACTGT
1 GAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATCGTAAATCAGTGGAC-GT
* * * *
56052595 AAGATTCGTAAAATCTC-TAAGTAAAAGGTCATGATCGTGAATCAGCGGACCGT
1 GAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATCGTAAATCAGTGGA-CGT
* * ** * ** *
56052648 AAGATTCGTAAAATCTCGTAAGTAAAAGGTTGTGATCATAAATCAACGGACTGC
1 GAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATCGTAAATCAGTGGAC-GT
* * * * *
56052702 GAGATTCGTTAAATCTCGCATGTAAAAAAGGTCATGATTGTAAATCAGTGGATCGT
1 GAGATTCGTAAAATCCCGTAAGT--AAAAGGTCATGATCGTAAATCAGTGGA-CGT
*
56052758 GAGATTCGTAAAATCCCATAAGTAAAAGGTCATGATCGTAAATCAGT
1 GAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATCGTAAATCAGT
56052805 AGACCGTAAG
Statistics
Matches: 213, Mismatches: 41, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.01
53 86 0.40
54 84 0.39
56 40 0.19
57 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (53 bp):
GAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATCGTAAATCAGTGGACGT
Found at i:56057843 original size:47 final size:47
Alignment explanation
Indices: 56057734--56057844 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
56057724 CCGGGATAAG
*
56057734 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
56057781 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
56057828 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
56057845 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:56058616 original size:4 final size:4
Alignment explanation
Indices: 56058607--56058638 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
56058597 CCCTTTTCTA
56058607 TTTC TTTC TTTC TTTC TTTC -TTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
56058639 CACGTTTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:56065100 original size:47 final size:47
Alignment explanation
Indices: 56064991--56065101 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
56064981 CCGGGATAAG
*
56064991 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
56065038 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
56065085 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
56065102 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:56065873 original size:4 final size:4
Alignment explanation
Indices: 56065864--56065892 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
56065854 CCCTTTTCTA
56065864 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
56065893 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:56066765 original size:25 final size:25
Alignment explanation
Indices: 56066720--56066795 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
56066710 ACAAGCTATA
* * *
56066720 AACGGTAAGCTCCTCCAAGCTGAAT
1 AACGGTAAGCTCATACGAGCTGAAT
56066745 AACGGTAAGCTCATACGAGCT-AAGT
1 AACGGTAAGCTCATACGAGCTGAA-T
* *
56066770 ATCGGTAAGCTCATAAGAGCTAGAAT
1 AACGGTAAGCTCATACGAGCT-GAAT
56066796 CGATAACCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
24 2 0.05
25 38 0.88
26 1 0.02
27 2 0.05
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTGAAT
Found at i:56072694 original size:19 final size:19
Alignment explanation
Indices: 56072670--56072708 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
56072660 TACTGAAATG
**
56072670 CCCTCGATTTGTAGAATTA
1 CCCTCGATTTACAGAATTA
56072689 CCCTCGATTTACAGAATTA
1 CCCTCGATTTACAGAATTA
56072708 C
1 C
56072709 TGTTTTACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (19 bp):
CCCTCGATTTACAGAATTA
Found at i:56072724 original size:27 final size:27
Alignment explanation
Indices: 56072686--56072778 Score: 143
Period size: 27 Copynumber: 3.4 Consensus size: 27
56072676 ATTTGTAGAA
* *
56072686 TTACCCTCGATTTACAGAATTACTGTT
1 TTACCCTCGATTTACAAAATTACCGTT
*
56072713 TTACCCTCGATTTACAAAATTACCATT
1 TTACCCTCGATTTACAAAATTACCGTT
56072740 TTACCCTC-AGTTTACAAAATTACCGTT
1 TTACCCTCGA-TTTACAAAATTACCGTT
56072767 TTACCCTCGATT
1 TTACCCTCGATT
56072779 GTGAAATTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 58 0.97
28 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.39
Consensus pattern (27 bp):
TTACCCTCGATTTACAAAATTACCGTT
Found at i:56072797 original size:26 final size:26
Alignment explanation
Indices: 56072741--56072960 Score: 154
Period size: 27 Copynumber: 8.2 Consensus size: 26
56072731 ATTACCATTT
** ***
56072741 TACCCTCAGTTTACAAAATTACCGTTT
1 TACCCT-AGTTTGTAAAATTACCGAAA
* * * *
56072768 TACCCTCGATTGTGAAATTACTGAAA
1 TACCCTAGTTTGTAAAATTACCGAAA
** * *
56072794 TACCCT-GTAGGATAGAATTACCAAAA
1 TACCCTAGTTTG-TAAAATTACCGAAA
*
56072820 TACCCCTAGTTTGTAAAATTACCAAAA
1 TA-CCCTAGTTTGTAAAATTACCGAAA
56072847 TACCCCTAGTTTGTAAAATTACCGAAA
1 TA-CCCTAGTTTGTAAAATTACCGAAA
* * *
56072874 TACCACTGGTTTGTGAAATTATCGAAA
1 TACC-CTAGTTTGTAAAATTACCGAAA
* *
56072901 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCT-AGTTTGTAAAATTACCGAAA
* * ** *
56072928 TATCCTTAATTTACAAAATTACAGAAA
1 TA-CCCTAGTTTGTAAAATTACCGAAA
56072955 TACCCT
1 TACCCT
56072961 TGACTTTCTA
Statistics
Matches: 153, Mismatches: 34, Indels: 13
0.76 0.17 0.06
Matches are distributed among these distances:
25 2 0.01
26 36 0.24
27 109 0.71
28 6 0.04
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (26 bp):
TACCCTAGTTTGTAAAATTACCGAAA
Found at i:56072939 original size:27 final size:27
Alignment explanation
Indices: 56072809--56072929 Score: 163
Period size: 27 Copynumber: 4.5 Consensus size: 27
56072799 TGTAGGATAG
56072809 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
56072836 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
56072863 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
56072890 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
56072917 AATTACCAAAATA
1 AATTACCAAAATA
56072930 TCCTTAATTT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.04
27 79 0.96
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:56073993 original size:25 final size:25
Alignment explanation
Indices: 56073924--56073993 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
56073914 AGGAAGTGCT
* * * *
56073924 AAAAGGGCTATGCCCCAGTCTAGCG
1 AAAAGGGTTTTGCCCCAGTTTAGCA
*
56073949 AAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGTTTTGCCCCAGTTTAGCA
56073974 AAAAGGGTTTTGCCCCAGTT
1 AAAAGGGTTTTGCCCCAGTT
56073994 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGTTTTGCCCCAGTTTAGCA
Found at i:56074262 original size:31 final size:31
Alignment explanation
Indices: 56074213--56074295 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
56074203 CGCTTACAGT
56074213 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
56074243 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
56074274 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
56074296 TCGAGACTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.30
31 35 0.70
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:56078195 original size:40 final size:40
Alignment explanation
Indices: 56078110--56078260 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
56078100 AATTGAATGA
* * * **
56078110 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
56078150 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
56078191 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
56078230 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
56078261 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:56078274 original size:40 final size:40
Alignment explanation
Indices: 56078147--56078276 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
56078137 ATGCTGGAAA
* * *
56078147 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
56078187 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
56078227 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
56078267 TTATATCCGG
1 TTATATCCGG
56078277 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:56086197 original size:40 final size:40
Alignment explanation
Indices: 56086131--56086281 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
56086121 AAATTGAATG
* * *
56086131 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
56086170 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
56086210 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
56086250 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
56086282 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:56086295 original size:40 final size:40
Alignment explanation
Indices: 56086168--56086297 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
56086158 ATGCTGGAAA
* * *
56086168 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
56086208 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
56086248 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
56086288 TTATATCCGG
1 TTATATCCGG
56086298 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:56088062 original size:43 final size:43
Alignment explanation
Indices: 56088001--56088087 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
56087991 ATAAATCGTA
* *
56088001 CAATGCCAACGTCCTAGAC-GTGGTCTTACAT-GTAACCACATAT
1 CAATGCCAACGTCCTAGACAG-AGTCTTAC-TCGTAAACACATAT
56088044 CAATGCC-ACTGTCCTAGACAGAGTCTTACTCGTAAACACATAT
1 CAATGCCAAC-GTCCTAGACAGAGTCTTACTCGTAAACACATAT
56088087 C
1 C
56088088 GGAATCACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCTAGACAGAGTCTTACTCGTAAACACATAT
Found at i:56093170 original size:48 final size:48
Alignment explanation
Indices: 56093099--56093369 Score: 305
Period size: 48 Copynumber: 5.6 Consensus size: 48
56093089 TAAAGTACCA
* * ** *
56093099 ATGCCATGTCCCCAACATGGTCTTACATGAATC-CACATATCATCGCTG
1 ATGCCATGTCCCAAACATGGTCTTACA-CAGGCACACATATCATCGCCG
56093147 ATGCCATGTCCCAAACATGGTCTTACACAGGCACACATATCATCGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACAGGCACACATATCATCGCCG
* * **
56093195 AT-CCTATGTCCCAGACATGGTCTTACACAGGCACACAAATCATCGTTG
1 ATGCC-ATGTCCCAAACATGGTCTTACACAGGCACACATATCATCGCCG
* * *
56093243 ATGCCATGTCCCAAACATGGTCTTACATAGGCACATATATTATCGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACAGGCACACATATCATCGCCG
* * ** *
56093291 ATGCCATGTCCCAGACATGGTCTTACACAGGGACACACCTCAGAT-GTCG
1 ATGCCATGTCCCAAACATGGTCTTACACAGGCACACATATC--ATCGCCG
** *
56093340 ATGCCATGTTTCACACATGGTCTTACACAG
1 ATGCCATGTCCCAAACATGGTCTTACACAG
56093370 AATCTCATTT
Statistics
Matches: 191, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
47 4 0.02
48 153 0.80
49 32 0.17
50 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACAGGCACACATATCATCGCCG
Found at i:56097083 original size:39 final size:39
Alignment explanation
Indices: 56097025--56097202 Score: 293
Period size: 39 Copynumber: 4.6 Consensus size: 39
56097015 TTGTGATCTA
* * *
56097025 AAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
56097064 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
*
56097103 AAGCACGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
* *
56097142 AAACCCGAAGGCTAACTAAAGCACACAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
*
56097181 AAGCCAGAAGGCTAACTGAAGC
1 AAGCCCGAAGGCTAACTGAAGC
56097203 TCATCAGAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 129 1.00
ACGTcount: A:0.40, C:0.24, G:0.25, T:0.11
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
Found at i:56097223 original size:78 final size:78
Alignment explanation
Indices: 56097025--56097225 Score: 280
Period size: 78 Copynumber: 2.6 Consensus size: 78
56097015 TTGTGATCTA
* * * * * *
56097025 AAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACAC
1 AAGCCAGAAGGCTAACTGAAGCACATCAGTGCTAAACGGAAACCCGAAGGCTAACTAAAGCACAC
56097090 AAGTGCTAAACGG
66 AAGTGCTAAACGG
56097103 AAG-CACGAAGGCTAACTGAAGCACA-CAAGTGCTAAACGGAAACCCGAAGGCTAACTAAAGCAC
1 AAGCCA-GAAGGCTAACTGAAGCACATC-AGTGCTAAACGGAAACCCGAAGGCTAACTAAAGCAC
56097166 ACAAGTGCTAAACGG
64 ACAAGTGCTAAACGG
* * * *
56097181 AAGCCAGAAGGCTAACTGAAGCTCATCAGAGCTGAACTGAAACCC
1 AAGCCAGAAGGCTAACTGAAGCACATCAGTGCTAAACGGAAACCC
56097226 CAAAAGGGTT
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
77 1 0.01
78 105 0.96
79 3 0.03
ACGTcount: A:0.39, C:0.25, G:0.24, T:0.12
Consensus pattern (78 bp):
AAGCCAGAAGGCTAACTGAAGCACATCAGTGCTAAACGGAAACCCGAAGGCTAACTAAAGCACAC
AAGTGCTAAACGG
Found at i:56103850 original size:68 final size:68
Alignment explanation
Indices: 56103767--56103904 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
56103757 TATTAGAGAA
56103767 AATGTACCTGTTGGAAGTCTAGTCGTGGGACATGTTCCAGCATAGGAACAAGTGGTAGACATGTT
1 AATGTACCTGTTGGAAGTCTAGTCGTGGGACATGTTCCAGCATAGGAACAAGTGGTAGACATGTT
56103832 TAC
66 TAC
56103835 AATGTACCTGTTGGAAGTCTAGTCGTGGGACATGTTCCAGCATAGGAACAAGTGGTAGACATGTT
1 AATGTACCTGTTGGAAGTCTAGTCGTGGGACATGTTCCAGCATAGGAACAAGTGGTAGACATGTT
56103900 TAC
66 TAC
56103903 AA
1 AA
56103905 AACCCTTATC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (68 bp):
AATGTACCTGTTGGAAGTCTAGTCGTGGGACATGTTCCAGCATAGGAACAAGTGGTAGACATGTT
TAC
Found at i:56106924 original size:21 final size:21
Alignment explanation
Indices: 56106898--56106940 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
56106888 AATTTAGTAG
*
56106898 TTTGTAAATATACTATGGCTC
1 TTTGTAAATAAACTATGGCTC
56106919 TTTGTAAATAAACTATGGCTC
1 TTTGTAAATAAACTATGGCTC
56106940 T
1 T
56106941 CTCAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (21 bp):
TTTGTAAATAAACTATGGCTC
Found at i:56112494 original size:19 final size:17
Alignment explanation
Indices: 56112457--56112499 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
56112447 GTGGTATTAT
* *
56112457 CATAATTCAATTCATAA
1 CATAAATCAATTCAAAA
56112474 CATCAAATCAAGTTCAAAA
1 CAT-AAATCAA-TTCAAAA
56112493 CATAAAT
1 CATAAAT
56112500 GCACAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (17 bp):
CATAAATCAATTCAAAA
Found at i:56120104 original size:19 final size:17
Alignment explanation
Indices: 56120067--56120109 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
56120057 GTGGTATTAT
* *
56120067 CATAATTCAATTCATAA
1 CATAAATCAATTCAAAA
56120084 CATCAAATCAAGTTCAAAA
1 CAT-AAATCAA-TTCAAAA
56120103 CATAAAT
1 CATAAAT
56120110 GCACAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (17 bp):
CATAAATCAATTCAAAA
Found at i:56122051 original size:15 final size:16
Alignment explanation
Indices: 56122021--56122061 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
56122011 TCTTTTCTAT
56122021 CTTTCCTTTTCTTTTA
1 CTTTCCTTTTCTTTTA
56122037 -TTTCCTTTT-TATTTA
1 CTTTCCTTTTCT-TTTA
*
56122052 CTTTACTTTT
1 CTTTCCTTTT
56122062 AATAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 13 0.59
16 8 0.36
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.71
Consensus pattern (16 bp):
CTTTCCTTTTCTTTTA
Found at i:56123995 original size:100 final size:100
Alignment explanation
Indices: 56123822--56124023 Score: 395
Period size: 100 Copynumber: 2.0 Consensus size: 100
56123812 ATATTCACAG
56123822 TAGAAAATTGGTTAAATTATGATTTCTTCCATGTACTAACCTGATTATGGAGATTTAGTTTATAT
1 TAGAAAATTGGTTAAATTATGATTTCTTCCATGTACTAACCTGATTATGGAGATTTAGTTTATAT
*
56123887 TTTTTAATTTTACATAATGTGATCATCCTATATAT
66 TTTTTAATTTTACATAATGTGATCATCCTACATAT
56123922 TAGAAAATTGGTTAAATTATGATTTCTTCCATGTACTAACCTGATTATGGAGATTTAGTTTATAT
1 TAGAAAATTGGTTAAATTATGATTTCTTCCATGTACTAACCTGATTATGGAGATTTAGTTTATAT
56123987 TTTTTAATTTTACATAATGTGATCATCCTACATAT
66 TTTTTAATTTTACATAATGTGATCATCCTACATAT
56124022 TA
1 TA
56124024 TTATAATTAA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (100 bp):
TAGAAAATTGGTTAAATTATGATTTCTTCCATGTACTAACCTGATTATGGAGATTTAGTTTATAT
TTTTTAATTTTACATAATGTGATCATCCTACATAT
Found at i:56124340 original size:20 final size:20
Alignment explanation
Indices: 56124312--56124361 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
56124302 CTCTATTATG
*
56124312 TTTAAATTTGAAATTTAAT-T
1 TTTATATTT-AAATTTAATAT
*
56124332 TTTATATTTTAATTTAATAT
1 TTTATATTTAAATTTAATAT
56124352 TTTAT-TTTAA
1 TTTATATTTAA
56124362 TAAATCATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTATATTTAAATTTAATAT
Found at i:56124345 original size:26 final size:26
Alignment explanation
Indices: 56124307--56124359 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
56124297 TTTCTCTCTA
*
56124307 TTATGTTTAAATTTGAA-ATTTAATTT
1 TTATATTTAAATTT-AATATTTAATTT
* *
56124333 TTATATTTTAATTTAATATTTTATTT
1 TTATATTTAAATTTAATATTTAATTT
56124359 T
1 T
56124360 AATAAATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (26 bp):
TTATATTTAAATTTAATATTTAATTT
Found at i:56124347 original size:19 final size:18
Alignment explanation
Indices: 56124323--56124362 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
56124313 TTAAATTTGA
*
56124323 AATTTAATTTTTATATTTT
1 AATTTAATATTT-TATTTT
56124342 AATTTAATATTTTATTTT
1 AATTTAATATTTTATTTT
56124360 AAT
1 AAT
56124363 AAATCATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
AATTTAATATTTTATTTT
Found at i:56124748 original size:19 final size:20
Alignment explanation
Indices: 56124724--56124769 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
56124714 AATTAAAATT
56124724 AATAAAAAATAA-AAAATAA
1 AATAAAAAATAATAAAATAA
*
56124743 AATAAATAATAATAAAATAA
1 AATAAAAAATAATAAAATAA
56124763 ATATAAA
1 A-ATAAA
56124770 TTAAATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.46
20 8 0.33
21 5 0.21
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (20 bp):
AATAAAAAATAATAAAATAA
Found at i:56124758 original size:15 final size:15
Alignment explanation
Indices: 56124723--56124765 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
56124713 GAATTAAAAT
56124723 TAATAA-AAAAT-AA
1 TAATAATAAAATAAA
56124736 -AA-AATAAAATAAA
1 TAATAATAAAATAAA
56124749 TAATAATAAAATAAA
1 TAATAATAAAATAAA
56124764 TA
1 TA
56124766 TAAATTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 7 0.27
13 2 0.08
14 2 0.08
15 13 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
TAATAATAAAATAAA
Found at i:56124765 original size:12 final size:12
Alignment explanation
Indices: 56124717--56124754 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
56124707 ATATAAGAAT
*
56124717 TAAAATTAATAA
1 TAAAATAAATAA
*
56124729 -AAAATAAAAAA
1 TAAAATAAATAA
56124740 TAAAATAAATAA
1 TAAAATAAATAA
56124752 TAA
1 TAA
56124755 TAAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:56124774 original size:26 final size:26
Alignment explanation
Indices: 56124714--56124775 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
56124704 ATTATATAAG
56124714 AATTAAAATTAATAAAAAATAAAAAATA
1 AATT-AAA-TAATAAAAAATAAAAAATA
* *
56124742 AAATAAATAATAATAAAAT-AAATATA
1 AATTAAATAATAA-AAAATAAAAAATA
56124768 AATTAAAT
1 AATTAAAT
56124776 TATATCAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 19 0.63
27 8 0.27
28 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (26 bp):
AATTAAATAATAAAAAATAAAAAATA
Found at i:56124775 original size:15 final size:14
Alignment explanation
Indices: 56124736--56124775 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
56124726 TAAAAAATAA
56124736 AAAATAAAATAAAT
1 AAAATAAAATAAAT
56124750 AATAATAAAATAAAT
1 AA-AATAAAATAAAT
*
56124765 ATAAATTAAAT
1 A-AAATAAAAT
56124776 TATATCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 2 0.09
15 20 0.87
16 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:56125370 original size:16 final size:17
Alignment explanation
Indices: 56125332--56125380 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
56125322 CAAGCTGGTC
56125332 CAAATTTG-ATTATCTT
1 CAAATTTGAATTATCTT
**
56125348 CGGATTTGAATTAT-TT
1 CAAATTTGAATTATCTT
*
56125364 CAAATTTAAATTATCTT
1 CAAATTTGAATTATCTT
56125381 AGACTTGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (17 bp):
CAAATTTGAATTATCTT
Found at i:56125900 original size:2 final size:2
Alignment explanation
Indices: 56125893--56125940 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
56125883 ATTCTAAATA
56125893 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56125935 AT AT AT
1 AT AT AT
56125941 GCAAAAACAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56129478 original size:42 final size:42
Alignment explanation
Indices: 56129371--56129516 Score: 132
Period size: 42 Copynumber: 3.5 Consensus size: 42
56129361 GCAATCATGT
** * * *
56129371 TGGCACATAAGTGTATCATTTGATTTACCGAAGCAAATATAT
1 TGGCACATAAGTGTATCATCAGATATACCGAAACAAATATAC
** * * * *
56129413 TGGCATGTAAGTGCATCACCAGATATACTGAAACAATTATAC
1 TGGCACATAAGTGTATCATCAGATATACCGAAACAAATATAC
* *
56129455 TGGCACATAAATGTATCATCAGATAAACC-AAAGCAAATATAC
1 TGGCACATAAGTGTATCATCAGATATACCGAAA-CAAATATAC
* * *
56129497 TAGCACGTAAGTGAATCATC
1 TGGCACATAAGTGTATCATC
56129517 GACTAAACCA
Statistics
Matches: 80, Mismatches: 23, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
41 3 0.04
42 77 0.96
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (42 bp):
TGGCACATAAGTGTATCATCAGATATACCGAAACAAATATAC
Found at i:56129524 original size:42 final size:42
Alignment explanation
Indices: 56129450--56129529 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
56129440 CTGAAACAAT
* *
56129450 TATACTGGCACATAAATGTATCATCAGATAAACCAAAGCAAA
1 TATACTAGCACATAAATGAATCATCAGATAAACCAAAGCAAA
* *
56129492 TATACTAGCACGTAAGTGAATCATC-GACTAAACCAAAG
1 TATACTAGCACATAAATGAATCATCAGA-TAAACCAAAG
56129530 TATAAACTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 31 0.94
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (42 bp):
TATACTAGCACATAAATGAATCATCAGATAAACCAAAGCAAA
Found at i:56132508 original size:6 final size:6
Alignment explanation
Indices: 56132499--56132548 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
56132489 CACATATTGG
* * * * *
56132499 TCATGT TCATAT TCATAT TCACAT TTACAT TCATTT TCATAT TCATAT
1 TCATAT TCATAT TCATAT TCATAT TCATAT TCATAT TCATAT TCATAT
56132547 TC
1 TC
56132549 CAGCAATAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.28, C:0.20, G:0.02, T:0.50
Consensus pattern (6 bp):
TCATAT
Found at i:56134697 original size:40 final size:40
Alignment explanation
Indices: 56134630--56134804 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
56134620 ACCCAAGTAT
*
56134630 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
56134669 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
56134709 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
** *
56134749 CTTC-GG-AATAGCTCGGATATAGCAACTCGCA-AGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA-AATGC
* *
56134787 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
56134805 TTATCATCCG
Statistics
Matches: 115, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
37 3 0.03
38 27 0.23
39 14 0.12
40 69 0.60
41 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:56134786 original size:78 final size:79
Alignment explanation
Indices: 56134630--56134804 Score: 216
Period size: 78 Copynumber: 2.2 Consensus size: 79
56134620 ACCCAAGTAT
* **
56134630 CTTCGGGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGTAATAGCCCGGATATAGC
56134694 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
56134709 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTC-GG-AATAGCTCGGATATAG
1 CTTCGGGTCTTAG-CCGGATATAA-CAACTAGCACAAATGCCTTCGGGTAATAGCCCGGATATAG
56134771 CAACTCGCA-AGAATGC
64 CAACTCGCACA-AATGC
*
56134787 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAG-CCGG
56134805 TTATCATCCG
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
77 1 0.01
78 44 0.52
79 13 0.15
80 26 0.31
81 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGTAATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:56138192 original size:40 final size:40
Alignment explanation
Indices: 56138084--56138293 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
56138074 CGGGATTTAA
* * * * *
56138084 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
56138124 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56138164 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56138204 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56138244 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56138284 CCGGATATAT
1 CCGGATATAT
56138294 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:56146303 original size:40 final size:40
Alignment explanation
Indices: 56146195--56146404 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
56146185 CGGGATTTAA
* * * * *
56146195 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
56146235 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56146275 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56146315 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56146355 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56146395 CCGGATATAT
1 CCGGATATAT
56146405 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:56151298 original size:46 final size:45
Alignment explanation
Indices: 56151245--56151373 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 45
56151235 TATTTGGGCA
*
56151245 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-C
*
56151291 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
* * *
56151336 ACCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56151374 CCGGTTTACC
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 4 0.05
46 72 0.95
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
Found at i:56152783 original size:26 final size:24
Alignment explanation
Indices: 56152739--56152806 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
56152729 AAGAATAGAA
* *
56152739 AAAGAAATA-AAGCACAAAGAATTG
1 AAAGAAATAGAAGGAAAAAGAA-TG
56152763 AAACGAAATAGAAGGAAAAAGAGA-G
1 AAA-GAAATAGAAGGAAAAAGA-ATG
*
56152788 AAAGAAAAAGAAGGAAAAA
1 AAAGAAATAGAAGGAAAAA
56152807 TTCGGGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 18 0.47
25 10 0.26
26 9 0.24
27 1 0.03
ACGTcount: A:0.68, C:0.04, G:0.22, T:0.06
Consensus pattern (24 bp):
AAAGAAATAGAAGGAAAAAGAATG
Found at i:56154032 original size:17 final size:15
Alignment explanation
Indices: 56154012--56154046 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
56154002 GATTTGAATA
56154012 ATTGTATGACTATAGTT
1 ATTGTATGA-TATA-TT
56154029 ATTGTATGATATATT
1 ATTGTATGATATATT
56154044 ATT
1 ATT
56154047 TTACCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 4 0.22
17 9 0.50
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.51
Consensus pattern (15 bp):
ATTGTATGATATATT
Found at i:56160140 original size:40 final size:40
Alignment explanation
Indices: 56160066--56160245 Score: 274
Period size: 40 Copynumber: 4.5 Consensus size: 40
56160056 AACCCAAGTA
* *
56160066 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
56160105 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
56160145 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * *
56160185 CCTTCAGAACTTAGCCCGGATATATTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
56160225 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
56160246 GTCATCCGAA
Statistics
Matches: 128, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.10
40 113 0.88
41 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:56165181 original size:28 final size:27
Alignment explanation
Indices: 56165145--56165222 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 27
56165135 TTTATAGAAC
* * *
56165145 AGATTGTCCTTGGCGGACATTCCACGTT
1 AGATAGTCCTTGGCGGAC-TTCCACATA
* *
56165173 AGATAGTCCTTGGCGTACTTTTCACATA
1 AGATAGTCCTTGGCGGAC-TTCCACATA
*
56165201 AGATAGTCATTGGCGGACTTCC
1 AGATAGTCCTTGGCGGACTTCC
56165223 CCTCTTCTAG
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 3 0.07
28 38 0.93
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (27 bp):
AGATAGTCCTTGGCGGACTTCCACATA
Found at i:56165712 original size:35 final size:35
Alignment explanation
Indices: 56165673--56165748 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
56165663 CTATAGAGCT
* *
56165673 AGTAGATCATTCATATGATGCCA-CTTCATAAAGCC
1 AGTAGATCATTCACATGATGCCACCCTCA-AAAGCC
* *
56165708 AGTAGATCATTCCCATGATGCCACCCTGAAAAGCC
1 AGTAGATCATTCACATGATGCCACCCTCAAAAGCC
56165743 AGTAGA
1 AGTAGA
56165749 CTATTTATCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 33 0.92
36 3 0.08
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (35 bp):
AGTAGATCATTCACATGATGCCACCCTCAAAAGCC
Found at i:56166768 original size:25 final size:24
Alignment explanation
Indices: 56166714--56166768 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
56166704 ATTAATGTTT
56166714 TTTTTTTAATTTAAAGGGATTAGTA
1 TTTTTTTAA-TTAAAGGGATTAGTA
*
56166739 ATTTTTTAA-TAGAAGGGATTAGTTA
1 TTTTTTTAATTA-AAGGGATTAG-TA
56166764 TTTTT
1 TTTTT
56166769 ATGTTGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 2 0.08
24 10 0.38
25 14 0.54
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (24 bp):
TTTTTTTAATTAAAGGGATTAGTA
Found at i:56166905 original size:107 final size:110
Alignment explanation
Indices: 56166794--56167402 Score: 832
Period size: 107 Copynumber: 5.6 Consensus size: 110
56166784 TTAGTAATTA
* * *
56166794 TTATAAATTATTTCTGTTTAGTTTAGT-TTT-TTGTGA-TTTTTATGAATGTAATTTTTTTTATT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTGTT
56166856 TTTTAAAATTA-TTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
66 TTTT-AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* *
56166901 TTATAAATTGTTTGTGTTTAGTTTGGTGTTTATTGTGATTTTTTATGAATGTAATTTTTCTTGTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTGTT
* *
56166966 TATT--ATTGTTTTAAAGTTA-TTTGTTAGTAATTTATGATTAGG
66 TTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * *
56167008 TTATAAATTGTTTGTGTTTAGTTTGGTGTTTATTGTGATTTTTTATGAACGTAATTTTTCTTGTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTGTT
* *
56167073 TATT--ATTATTTTAAAGTTATTTCGTTAGTAA-TTATGATTAGG
66 TTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
*
56167115 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAAATTTTTTGTGT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGT-AATTTTTTTTGT
* * **
56167180 TTTTAAAATTATTTTTAAAGTTAGTTTGTTAGTAATTTATGATTACT
65 TTTTTAAATTA-TTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * *
56167227 TTATAAATTGTTTGTGTTTAGTTTAGTATTTATTGTGATTTTTTATCAATGTAAATTCTTTTGTG
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGT-AATT-TTTTTTG
*
56167292 TTTTTTAAATTATTTTAAAGTTATTTTTTTAGTAATTTATGATTAGG
64 TTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * * * * *
56167339 TTATAAATT-ATT-TGTTTAGCTTAATGTGTATTTTGATTTATTAT-AATGTAA-TTTTTTTGTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTGTT
56167400 TTT
66 TTT
56167403 GATTTATTTG
Statistics
Matches: 456, Mismatches: 35, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
106 11 0.02
107 194 0.43
108 38 0.08
109 11 0.02
110 57 0.12
111 23 0.05
112 104 0.23
113 18 0.04
ACGTcount: A:0.25, C:0.01, G:0.15, T:0.59
Consensus pattern (110 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTGTT
TTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
Found at i:56167683 original size:21 final size:22
Alignment explanation
Indices: 56167637--56167689 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
56167627 TTATTGTAAT
* *
56167637 TATATTATTATTGTACTATATT
1 TATAATATTATTGTACTATATG
* *
56167659 TATAGTATTATT-TACTGTATG
1 TATAATATTATTGTACTATATG
56167680 TATAATATTA
1 TATAATATTA
56167690 ATGTGTTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.55
Consensus pattern (22 bp):
TATAATATTATTGTACTATATG
Found at i:56169724 original size:40 final size:40
Alignment explanation
Indices: 56169679--56169808 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
56169669 CGGAATACAA
56169679 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56169719 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
56169759 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
56169799 CCGGATATAA
1 CCGGATATAA
56169809 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56169823 original size:40 final size:39
Alignment explanation
Indices: 56169695--56169842 Score: 145
Period size: 40 Copynumber: 3.7 Consensus size: 39
56169685 ATAACCATGT
* * *
56169695 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
56169735 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
56169775 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* * *
56169814 AGCATAATTGTCTTCGGGGCTTAGCCCGG
1 -GCACAATTGCCTTCGGGTCTTAGCCCGG
56169843 GTATCATTCA
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 86 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Done.